deb_control_files:
- control
- md5sums
- postinst
- prerm
deb_fields:
Architecture: all
Depends: med-config (= 3.8.2), med-tasks (= 3.8.2)
Description: |-
Debian Med bioinformatics packages
This metapackage will install Debian packages for use in molecular biology,
structural biology and other biological sciences.
Installed-Size: '44'
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Package: med-bio
Priority: optional
Recommends: abacas, abpoa, abyss, acedb-other, adapterremoval, adun-core, aegean,
aevol, alien-hunter, alter-sequence-alignment, altree, amap-align, ampliconnoise,
andi, anfo, any2fasta, aragorn, arden, ariba, art-nextgen-simulation-tools, artemis,
artfastqgenerator, assembly-stats, assemblytics, atac, ataqv, atropos, augur,
augustus, autodock, autodock-vina, autogrid, avogadro, axe-demultiplexer, baitfisher,
bali-phy, ballview, bamclipper, bamkit, bamtools, bandage, barrnap, bbmap, bcalm,
bcftools, beads, beagle, beast-mcmc, beast2-mcmc, bedops, bedtools, belvu, berkeley-express,
bifrost, bio-eagle, bio-rainbow, bio-tradis, bio-vcf, bioawk, biobambam2, biosyntax,
bitseq, blasr, blixem, bolt-lmm, bowtie, bowtie2, boxshade, bppphyview, bppsuite,
brig, btllib-tools, busco, bustools, bwa, canu, cassiopee, cat-bat, cct, cd-hit,
cdbfasta, centrifuge, cgview, changeo, chimeraslayer, chromhmm, chromimpute, cif-tools,
circlator, circos, clearcut, clonalframe, clonalframeml, clonalorigin, clustalo,
clustalw, clustalx, cnvkit, codonw, comet-ms, concavity, conservation-code, coot,
covtobed, crac, csb, ctffind, cutadapt, cutesv, daligner, damapper, datamash,
dawg, dazzdb, deblur, delly, density-fitness, dextractor, dialign, dialign-tx,
diamond-aligner, discosnp, disulfinder, dnaclust, dnarrange, dotter, drop-seq-tools,
dssp, dwgsim, e-mem, ea-utils, ecopcr, edtsurf, eigensoft, elph, embassy-domainatrix,
embassy-domalign, embassy-domsearch, emboss, emmax, estscan, examl, exonerate,
fasta3, fastahack, fastani, fastaq, fastdnaml, fastlink, fastml, fastp, fastq-pair,
fastqc, fastqtl, fasttree, ffindex, figtree, filtlong, fitgcp, flash, flexbar,
flye, fml-asm, freebayes, freecontact, fsa, fsm-lite, gamgi, garli, garlic, gasic,
gatb-core, gbrowse, gdpc, gemma, genometester, genomethreader, genometools, genomicsdb-tools,
gentle, gff2aplot, gff2ps, gffread, ggd-utils, ghemical, ghmm, glam2, gmap, grabix,
graphlan, grinder, gromacs, gsort, gubbins, gwama, harvest-tools, hhsuite, hilive,
hinge, hisat2, hmmer, hmmer2, hyphy-mpi | hyphy-pt, idba, igblast, igor, igv,
indelible, infernal, insilicoseq, ipig, iqtree, iva, jaligner, jalview, jellyfish,
jellyfish1, jmodeltest, jmol, kalign, kallisto, kaptive, khmer, kineticstools,
king-probe, kissplice, kleborate, kma, kmc, kmer, kmerresistance, kraken, kraken2,
lagan, lamarc, lamassemble, lambda-align, lambda-align2, last-align, lastz, leaff,
lefse, libpwiz-tools, librg-utils-perl, libvcflib-tools, lighter, loki, ltrsift,
lucy, lumpy-sv, macs, macsyfinder, maffilter, mafft, malt, mapdamage, mapsembler2,
maq, maqview, mash, massxpert, mauve-aligner, mcaller, mecat2, megadepth, megahit,
megan-ce, melting, meryl, metabat, metaeuk, metaphlan, metastudent, mhap, microbegps,
microbiomeutil, mindthegap, minexpert2, minia, miniasm, minimac4, minimap, minimap2,
mipe, mira-assembler, mirtop, mlv-smile, mmb, mmseqs2, mosdepth, mothur, mptp,
mrbayes, multiqc, mummer, murasaki | murasaki-mpi, muscle, muscle3, mustang, nanofilt,
nanolyse, nanook, nanopolish, nanostat, nanosv, nast-ier, ncbi-acc-download, ncbi-blast+,
ncbi-blast+-legacy, ncbi-entrez-direct, ncbi-epcr, ncbi-seg, ncbi-tools-bin, ncbi-tools-x11,
ncl-tools, ncoils, neobio, ngmlr, njplot, norsnet, norsp, ntcard, nxtrim, obitools,
openms, optimir, pal2nal, paleomix, paml, paraclu, parasail, parsinsert, parsnp,
patman, pbdagcon, pbhoney, pbjelly, pbsim, pbsuite, pdb2pqr, perlprimer, perm,
pftools, phast, phipack, phybin, phylip, phylonium, phyml, physamp, phyutility,
phyx, picard-tools, picopore, pigx-rnaseq, piler, pilercr, pilon, pinfish, pique,
pirs, pizzly, placnet, plasmidid, plasmidomics, plasmidseeker, plast, plink, plink1.9,
plink2, plip, poa, populations, porechop, poretools, pplacer, prank, predictnls,
presto, prime-phylo, primer3, prinseq-lite, proalign, probabel, probalign, probcons,
proda, prodigal, profbval, profisis, profnet-bval, profnet-chop, profnet-con,
profnet-isis, profnet-md, profnet-norsnet, profnet-prof, profnet-snapfun, profphd-net,
profphd-utils, proftmb, progressivemauve, prokka, proteinortho, prottest, provean,
pscan-chip, pscan-tfbs, psortb, pullseq, pycoqc, pycorrfit, pyensembl, pyfastx,
pymol, pyscanfcs, python3-biomaj3-daemon, python3-bioxtasraw, python3-cogent3,
python3-emperor, python3-geneimpacts, python3-gffutils, python3-pairtools, python3-pybedtools,
python3-sqt, python3-treetime, pyvcf, qcat, qcumber, qiime, qtltools, quicktree,
quorum, qutemol, r-bioc-annotate, r-bioc-biostrings, r-bioc-cner, r-bioc-cummerbund,
r-bioc-deseq2, r-bioc-ebseq, r-bioc-edger, r-bioc-genefilter, r-bioc-geoquery,
r-bioc-hilbertvis, r-bioc-htsfilter, r-bioc-impute, r-bioc-limma, r-bioc-megadepth,
r-bioc-mergeomics, r-bioc-metagenomeseq, r-bioc-mofa, r-bioc-multiassayexperiment,
r-bioc-mutationalpatterns, r-bioc-pcamethods, r-bioc-phyloseq, r-bioc-rtracklayer,
r-bioc-scater, r-bioc-tfbstools, r-cran-adegenet, r-cran-adephylo, r-cran-alakazam,
r-cran-ape, r-cran-bio3d, r-cran-distory, r-cran-genabel, r-cran-kaos, r-cran-phangorn,
r-cran-phytools, r-cran-pscbs, r-cran-qtl, r-cran-rotl, r-cran-samr, r-cran-sdmtools,
r-cran-seqinr, r-cran-seurat, r-cran-shazam, r-cran-spp, r-cran-tcr, r-cran-tigger,
r-cran-treespace, r-cran-tsne, r-cran-vegan, r-cran-webgestaltr, r-cran-wgcna,
r-other-ascat, r-other-mott-happy.hbrem, r-other-rajewsky-dropbead, racon, radiant,
ragout, rambo-k, rampler, rapmap, rasmol, raster3d, rate4site, raxml, ray, rdp-alignment,
rdp-classifier, rdp-readseq, readseq, readucks, reapr, recan, relion, relion-gui,
repeatmasker-recon, reprof, resfinder, rna-star, rnahybrid, roary, rockhopper,
roguenarok, rsem, rtax, runcircos-gui, saint, salmid, salmon, sambamba, samblaster,
samclip, samtools, savvy-util, scoary, scrappie, scrm, scythe, seaview, seer,
segemehl, sepp, seqan-apps, seqan-needle, seqan-raptor, seqkit, seqmagick, seqprep,
seqsero, seqtk, sga, shasta, shovill, sibelia, sibsim4, sickle, sigma-align, sim4,
sim4db, simka, simkamin, ska, skesa, skewer, smalt, smithwaterman, smrtanalysis,
snap, snap-aligner, sniffles, snippy, snp-sites, snpeff, snpomatic, snpsift, soapaligner,
soapdenovo, soapdenovo2, soapsnp, sortmerna, spaced, spades, spaln, spoa, sprai,
spread-phy, sra-toolkit, srst2, ssake, sspace, ssw-align, stacks, staden, staden-io-lib-utils,
stringtie, subread, suitename, sumaclust, sumatra, sumtrees, surankco, surpyvor,
survivor, svim, swarm, sweed, t-coffee, tabix, tantan, terraphast, theseus, thesias,
tiddit, tigr-glimmer, tipp, tm-align, tnseq-transit, toil, tombo, tophat-recondition,
topp, toppred, tortoize, trace2dbest, tracetuner, transdecoder, transrate-tools,
transtermhp, tree-puzzle | tree-ppuzzle, treeview, treeviewx, trf, trim-galore,
trimmomatic, trinityrnaseq, tvc, twopaco, uc-echo, ugene, umap-learn, umis, uncalled,
unicycler, unikmer, varna, vcfanno, vcftools, velvet | velvet-long, velvetoptimiser,
veryfasttree, vg, virulencefinder, vmatch, vsearch, vt, wham-align, wigeon, wise,
xpore, yaha, yanagiba, yanosim
Section: metapackages
Source: debian-med
Suggests: acacia, adun.app, agat, amos-assembler, amoscmp, annovar, apollo, arachne,
arb, arvados, asap, axparafit, axpcoords, bagpipe, bambus, bax2bam, bcbio, biceps,
big-blast, bigsdb, bismark, blat, blimps-utils, blobology, braker, btk-core, cactus,
caftools, card-rgi, catfishq, cdna-db, cellprofiler, cinema, cluster3, cmap, conda-package-handling,
condetri, contrafold, contralign, copycat, covpipe, crossbow, crux-toolkit, cufflinks,
cytoscape, dascrubber, dazzle, deepbinner, deepnano, dendroscope, diann, dnapi,
e-hive, ecell, embassy-phylip, emboss-explorer, ensembl, ensembl-vep, estferret,
euler-sr, euler2, exabayes, exalt, excavator, ffp, fieldbioinformatics, figaro,
flappie, forester, forge, galaxy, gatk, gbrowse-syn, genemark, genesplicer, genetrack,
genezilla, genographer, gerp++, getdata, glimmerhmm, gmv, gramalign, graphbin,
graphmap2, haploview, hawkeye, htqc, hts-nim-tools, idefix, idseq-bench, illustrate,
inspect, jbrowse, jigsaw, kempbasu, libhdf5-dev, libhnswlib-dev, lofreq, mach-haplotyper,
mage2tab, maker2, manta, marginphase, martj, maude, maxd, medaka, meme, mesquite,
metabit, metarep, metastudent-data, metastudent-data-2, migrate, minimus, mirbase,
modeller, molekel, mosaik-aligner, mpsqed, mrs, msatfinder, mugsy, mummergpu,
mview, nano-snakemake, nanocall, nanocomp, nanoplot, ncbi-magicblast, nextsv,
ngila, ngsqctoolkit, nw-align, oases, obo-edit, oligoarrayaux, omegamap, oncofuse,
operondb, optitype, paipline, pangolin, partigene, partitionfinder, patristic,
pcma, pfaat, phagefinder, phpphylotree, phylographer, phylophlan, phyloviz-core,
phylowin, pigx-scrnaseq, pipasic, plato, pomoxis, profit, profphd, prot4est, psipred,
pssh2, pufferfish, purple, pyrophosphate-tools, python3-alignlib, python3-anndata,
python3-cgecore, python3-cyvcf2, python3-deeptools, python3-deeptoolsintervals,
python3-htseq, python3-intake, python3-loompy, python3-nanoget, python3-nanomath,
python3-ncls, python3-orange, python3-py2bit, python3-pybel, python3-pychopper,
python3-pyfaidx, python3-pyflow, python3-pyranges, python3-pyrle, python3-pysam,
python3-tinyalign, q2-alignment, q2-composition, q2-cutadapt, q2-dada2, q2-deblur,
q2-demux, q2-diversity, q2-emperor, q2-feature-classifier, q2-feature-table, q2-fragment-insertion,
q2-gneiss, q2-longitudinal, q2-metadata, q2-phylogeny, q2-quality-control, q2-quality-filter,
q2-sample-classifier, q2-taxa, q2-types, q2-vsearch, q2cli, q2templates, qtlcart,
qtlreaper, qualimap, quast, r-bioc-annotationhub, r-bioc-aroma.light, r-bioc-beachmat,
r-bioc-biocneighbors, r-bioc-biocsingular, r-bioc-bitseq, r-bioc-ctc, r-bioc-dnacopy,
r-bioc-ensembldb, r-bioc-experimenthub, r-bioc-geneplotter, r-bioc-genomicalignments,
r-bioc-genomicfiles, r-bioc-genomicranges, r-bioc-go.db, r-bioc-grohmm, r-bioc-gviz,
r-bioc-isoformswitchanalyzer, r-bioc-mofa2, r-bioc-org.hs.eg.db, r-bioc-org.mm.eg.db,
r-bioc-qusage, r-bioc-savr, r-bioc-singlecellexperiment, r-bioc-structuralvariantannotation,
r-bioc-tximport, r-cran-amap, r-cran-biwt, r-cran-boolnet, r-cran-corrplot, r-cran-drinsight,
r-cran-dynamictreecut, r-cran-epir, r-cran-fitdistrplus, r-cran-forecast, r-cran-gprofiler2,
r-cran-minerva, r-cran-optimalcutpoints, r-cran-parmigene, r-cran-pheatmap, r-cran-qqman,
r-cran-rcpphnsw, r-cran-rentrez, r-cran-sctransform, r-other-apmswapp, r-other-fastbaps,
raxml-ng, rbs-finder, relion-cuda, relion-gui-cuda, repeatmasker, resfinder-db,
roadtrips, roche454ace2caf, rosa, rose, rsat, sailfish, sap, science-workflow,
seq-gen, seq-seq-pan, seqcluster, seqwish, sift, signalalign, sina, sistr, situs,
solvate, sourmash, sparta, splitstree, ssaha, strap, strap-base, strelka, tab2mage,
tacg, tandem-genotypes, taverna, taxinspector, tetra, tide, tigr-glimmer-mg, tn-seqexplorer,
tophat, treebuilder3d, tripal, trnascan-se, twain, ufasta, umap, unc-fish, uniprime,
varmatch, varscan, vdjtools, vienna-rna, viewmol, vmd, x-tandem-pipeline, zodiac-zeden
Version: 3.8.2
srcpkg_name: debian-med
srcpkg_version: 3.8.2